RetrogeneDB ID: retro_etel_1424

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_263415:1733..2262(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: COQ7
• Ensembl ID: ENSETEG00000016203
• Aliases: None
• Description: coenzyme Q7 homolog, ubiquinone (yeast) [Source:HGNC Symbol;Acc:2244]

Sequence

>retro_etel_1424
ATGACCTGCGCCGGGGCCTGGGTGGCGGTGACCCGTCCTCTGTGGCGGCTGCACACCAGTGCCCGGCGGCCCCTCTCAGT
TTTTGGAAGGAAGCTTGGCGCCAGGTGTTGCAGTTCGGGAATGACCTTAGACACCATCAACCGGGCGACTGTGGATCGAA
TAATTTGGGTGGATCATGCTGTTGAATATGGCGCCAACCGTTTCTATGCAGGGCAGATGGCGGTCCTGGGCCAGACCAGC
GTTGGACCAATCATCCAGAAAATGTGGGATCAGGAGAAGGAACATCTGAAGAAGTTCAGTGAGCTGATGGTGGCCCTCAG
GGTCCGGCCGACGGCTCTCATGCTCTTTTGGAACGTGATGGGGTTTGCTCTGGGAGCGGGGACCGGCTTGCTGGGGAAGG
AAGGCGTGATGGCTCAGCACCGTGGCCGTGGAAGAGTCCGTGTCACATCACTACACAACCAGTATCTGGGCGCTGATGGA
GGAGGGTCCTGTAAAGCACAAGGAACTCCTTTAGGTCATAAAGGAGTTC

Alignment

ORF - retro_etel_1424 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.62 %
• Parental protein coverage: 80.37 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MTCAGAGAAAAQPLWRLRTSARRPLSVFGRKLGARCCSSGMTLDTINRATVDRIIRVDHAGEYGANRIYA
          MTCAGA..A...PLWRL.TSARRPLSVFGRKLGARCCSSGMTLDTINRATVDRII.VDHA.EYGANR.YA
Retrocopy MTCAGAWVAVTRPLWRLHTSARRPLSVFGRKLGARCCSSGMTLDTINRATVDRIIWVDHAVEYGANRFYA

Parental  GQMAVLGRTSVGPVIQKMWDQEKEHLRKFSELMVALRVRPTALMPFWNVMGFALGAGTALLGREGAMA-C
          GQMAVLG.TSVGP.IQKMWDQEKEHL.KFSELMVALRVRPTALM.FWNVMGFALGAGT.LLG.EG.MA..
Retrocopy GQMAVLGQTSVGPIIQKMWDQEKEHLKKFSELMVALRVRPTALMLFWNVMGFALGAGTGLLGKEGVMA>S

Parental  TVAVEESISHHYNNQIRTLMEEGPEKYEELLQVIKKF
          TVAVEES.SHHY...I..LMEEGP.K..ELL.VIK.F
Retrocopy TVAVEESVSHHYTTSIWALMEEGPVKHKELL*VIKEF

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq

Echinops telfairi was not studied using ChIP-Seq data.

EST

Echinops telfairi was not studied using EST data.

TSS

Echinops telfairi was not studied using FANTOM5 data.

Lab

retro_etel_1424 was not experimentally validated.

Homology

Retrocopy orthology:

Echinops telfairi does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000406	4 retrocopies	retro_chof_1015, retro_chof_1791, retro_chof_291, retro_chof_569,
Echinops telfairi	ENSETEG00000016203	2 retrocopies	retro_etel_1424 , retro_etel_1605,
Macaca mulatta	ENSMMUG00000006604	1 retrocopy	retro_mmul_347,
Sarcophilus harrisii	ENSSHAG00000018111	1 retrocopy	retro_shar_273,
Ictidomys tridecemlineatus	ENSSTOG00000003901	1 retrocopy	retro_itri_642,
Tupaia belangeri	ENSTBEG00000001643	1 retrocopy	retro_tbel_1265,